Human Gene FIBCD1 (ENST00000372338.9) from GENCODE V44
  Description: Homo sapiens fibrinogen C domain containing 1 (FIBCD1), transcript variant 1, mRNA. (from RefSeq NM_032843)
RefSeq Summary (NM_032843): FIBCD1 is a conserved type II transmembrane endocytic receptor that binds chitin and is located primarily in the intestinal brush border (Schlosser et al., 2009 [PubMed 19710473]).[supplied by OMIM, Apr 2010].
Gencode Transcript: ENST00000372338.9
Gencode Gene: ENSG00000130720.13
Transcript (Including UTRs)
   Position: hg38 chr9:130,902,440-130,939,247 Size: 36,808 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg38 chr9:130,904,064-130,938,607 Size: 34,544 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:130,902,440-130,939,247)mRNA (may differ from genome)Protein (461 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FBCD1_HUMAN
DESCRIPTION: RecName: Full=Fibrinogen C domain-containing protein 1;
FUNCTION: Acetyl group-binding receptor which shows a high- affinity and calcium-dependent binding to acetylated structures such as chitin, some N-acetylated carbohydrates, and amino acids, but not to their non-acetylated counterparts. Can facilitate the endocytosis of acetylated components.
SUBUNIT: Homotetramer; disulfide-linked.
SUBCELLULAR LOCATION: Membrane; Single-pass type II membrane protein (Potential).
TISSUE SPECIFICITY: Expressed in the small and large intestinal epithelial cells with a highly polarized localization to the apical surface corresponding to the brush border and in the ducts of the salivary gland.
SIMILARITY: Contains 1 fibrinogen C-terminal domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 6.11 RPKM in Testis
Total median expression: 20.67 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -340.40640-0.532 Picture PostScript Text
3' UTR -766.701624-0.472 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002181 - Fibrinogen_a/b/g_C
IPR014716 - Fibrinogen_a/b/g_C_1
IPR014715 - Fibrinogen_a/b/g_C_2
IPR020837 - Fibrinogen_CS

Pfam Domains:
PF00147 - Fibrinogen beta and gamma chains, C-terminal globular domain

ModBase Predicted Comparative 3D Structure on Q8N539
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsemblWormBase 
Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence 
AlignmentAlignmentAlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008061 chitin binding
GO:0046872 metal ion binding

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AY358311 - Homo sapiens clone DNA59776 NL7 (UNQ701) mRNA, complete cds.
AK027716 - Homo sapiens cDNA FLJ14810 fis, clone NT2RP4001823, weakly similar to MICROFIBRIL-ASSOCIATED GLYCOPROTEIN 4.
BC112892 - Homo sapiens fibrinogen C domain containing 1, mRNA (cDNA clone IMAGE:4400821), partial cds.
BC032953 - Homo sapiens fibrinogen C domain containing 1, mRNA (cDNA clone MGC:33476 IMAGE:4811679), complete cds.
JD390483 - Sequence 371507 from Patent EP1572962.
JD223771 - Sequence 204795 from Patent EP1572962.
JD128278 - Sequence 109302 from Patent EP1572962.
JD130620 - Sequence 111644 from Patent EP1572962.
JD075617 - Sequence 56641 from Patent EP1572962.
JD439701 - Sequence 420725 from Patent EP1572962.
JD294653 - Sequence 275677 from Patent EP1572962.
JD533264 - Sequence 514288 from Patent EP1572962.
JD149700 - Sequence 130724 from Patent EP1572962.
JD174138 - Sequence 155162 from Patent EP1572962.
JD093854 - Sequence 74878 from Patent EP1572962.
JD459564 - Sequence 440588 from Patent EP1572962.
JD165779 - Sequence 146803 from Patent EP1572962.
JD295206 - Sequence 276230 from Patent EP1572962.
JD255212 - Sequence 236236 from Patent EP1572962.
JD485109 - Sequence 466133 from Patent EP1572962.
JD095104 - Sequence 76128 from Patent EP1572962.
JD429221 - Sequence 410245 from Patent EP1572962.
DQ577880 - Homo sapiens piRNA piR-45992, complete sequence.
JD270784 - Sequence 251808 from Patent EP1572962.
AK292489 - Homo sapiens cDNA FLJ76446 complete cds, highly similar to Homo sapiens fibrinogen C domain containing 1 (FIBCD1), mRNA.
JD210925 - Sequence 191949 from Patent EP1572962.
JD520972 - Sequence 501996 from Patent EP1572962.
JD426631 - Sequence 407655 from Patent EP1572962.
JD480763 - Sequence 461787 from Patent EP1572962.
JD061814 - Sequence 42838 from Patent EP1572962.
JD440318 - Sequence 421342 from Patent EP1572962.
JD077503 - Sequence 58527 from Patent EP1572962.
JD357309 - Sequence 338333 from Patent EP1572962.
JD142124 - Sequence 123148 from Patent EP1572962.
JD214899 - Sequence 195923 from Patent EP1572962.
JD394859 - Sequence 375883 from Patent EP1572962.
JD125276 - Sequence 106300 from Patent EP1572962.
JD396510 - Sequence 377534 from Patent EP1572962.
JD565099 - Sequence 546123 from Patent EP1572962.
JD236000 - Sequence 217024 from Patent EP1572962.
JD439516 - Sequence 420540 from Patent EP1572962.
JD448709 - Sequence 429733 from Patent EP1572962.
JD371238 - Sequence 352262 from Patent EP1572962.
JD275136 - Sequence 256160 from Patent EP1572962.
JD560434 - Sequence 541458 from Patent EP1572962.
JD155186 - Sequence 136210 from Patent EP1572962.
JD358976 - Sequence 340000 from Patent EP1572962.
JD396998 - Sequence 378022 from Patent EP1572962.
JD406207 - Sequence 387231 from Patent EP1572962.
JD402089 - Sequence 383113 from Patent EP1572962.
JD314486 - Sequence 295510 from Patent EP1572962.
JD100123 - Sequence 81147 from Patent EP1572962.
KJ899848 - Synthetic construct Homo sapiens clone ccsbBroadEn_09242 FIBCD1 gene, encodes complete protein.
AK300287 - Homo sapiens cDNA FLJ56753 complete cds, highly similar to Homo sapiens fibrinogen C domain containing 1 (FIBCD1), mRNA.
JD455712 - Sequence 436736 from Patent EP1572962.
JD055119 - Sequence 36143 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A3KFK0, ENST00000372338.1, ENST00000372338.2, ENST00000372338.3, ENST00000372338.4, ENST00000372338.5, ENST00000372338.6, ENST00000372338.7, ENST00000372338.8, FBCD1_HUMAN, NM_032843, Q6UXK6, Q8N539, Q96SJ7, uc004bzz.1, uc004bzz.2, uc004bzz.3, uc004bzz.4, uc004bzz.5, UNQ701/PRO1346
UCSC ID: ENST00000372338.9
RefSeq Accession: NM_032843
Protein: Q8N539 (aka FBCD1_HUMAN)
CCDS: CCDS6937.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.